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Next-generation Sequencing

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Related Experiment Video

Updated: Dec 23, 2025

Targeted Next-generation Sequencing and Bioinformatics Pipeline to Evaluate Genetic Determinants of Constitutional Disease

Targeted Next-generation Sequencing and Bioinformatics Pipeline to Evaluate Genetic Determinants of Constitutional Disease

Published on: April 4, 2018

DolphinNext: a distributed data processing platform for high throughput genomics.

Onur Yukselen¹, Osman Turkyilmaz², Ahmet Rasit Ozturk²

¹Bioinformatics Core, University of Massachusetts Medical School, Worcester, MA, 01605, USA.

|April 21, 2020

Summary

This summary is machine-generated.

DolphinNext simplifies complex genomic data analysis pipelines using a graphical interface and the Nextflow framework. This enhances reproducibility and accessibility for researchers, even those without extensive programming experience.

Keywords:

Big data processing Genome analysis Pipeline Sequencing Workflow

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Targeted Next-generation Sequencing and Bioinformatics Pipeline to Evaluate Genetic Determinants of Constitutional Disease

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Published on: April 4, 2018

High-Throughput Transcriptome Analysis for Investigating Host-Pathogen Interactions

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Droplet Barcoding-Based Single Cell Transcriptomics of Adult Mammalian Tissues

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Published on: January 10, 2019

Area of Science:

Genomics and Bioinformatics
Computational Biology

Background:

High-throughput sequencing generates vast genomic data, creating analysis bottlenecks.
Existing data processing frameworks lack essential parallelism, portability, and reproducibility.
A need exists for user-friendly platforms to manage complex computational pipelines.

Purpose of the Study:

To develop a graphical user interface (GUI) for creating, maintaining, and executing complex data processing pipelines.
To enhance the accessibility and reproducibility of genomic data analysis for researchers.
To provide a robust platform for managing and sharing computational workflows.

Main Methods:

Developed DolphinNext, a GUI-based platform leveraging the Nextflow workflow framework.
Implemented a modular approach with drag-and-drop functionality for pipeline construction.
Integrated features for distributed computing, version tracking, and automated testing.

Main Results:

DolphinNext offers a visual, intuitive interface for pipeline development, requiring no programming expertise.
The platform supports execution in distributed environments (clusters, cloud) and ensures pipeline reproducibility.
Features include modular process design, reusability, pipeline sharing via GitHub, and automated testing.
Generated extensive reports with R-markdown and Shiny for interactive data visualization.

Conclusions:

DolphinNext is an intuitive, web-based platform for Nextflow pipeline management.
It enhances the creation, deployment, sharing, and execution of complex pipelines.
The platform promotes reproducible results through revisioning and interactive reporting.